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Data released on May 02, 2014

Genomic data of the Bar-tailed trogon (Apaloderma vittatum).

Gilbert, M, P; Jarvis, E, D; Li, B; Li, C; The Avian Genome Consortium, ; Wang, J; Zhang, G (2014): Genomic data of the Bar-tailed trogon (Apaloderma vittatum). GigaScience Database. http://dx.doi.org/10.5524/101016 RIS BibTeX Text

The Bar-tailed trogon (Apaloderma vittatum (Shelley, 1882)) belongs to the Trogonidae family of birds and lives in forests at a preferred altitude of around 1600 metres, and who's vocalisations are described "a yelping crescendo". It is found in several African countries - Angola, Burundi, Cameroon, Democratic Republic of the Congo, Equatorial Guinea, and Kenya, to name a few.
These data have been produced as part of the Avian Phylogenomics Project. DNA was collected from a vouchered tissue sample (Cat# 140150) from the Natural History Museum of Denmark, of a male collected in the Udzungwa mountains of Tanzania. We sequenced the genome to a depth of approximately 28X.
The assembled scaffolds of high quality sequences total 1.08Gb, with the contig and scaffold N50 values of 19kb and 56kb respectively. We identified 13,615 protein-coding genes with a mean length of 13.5kb.

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Read the peer-reviewed publication(s):

Zhang, G., Li, B., Li, C., Gilbert, M. T. P., Jarvis, E. D., & Wang, J. (2014). Comparative genomic data of the Avian Phylogenomics Project. GigaScience, 3(1). doi:10.1186/2047-217x-3-26
Zhang, G., Li, C., Li, Q., Li, B., Larkin, D. M., Lee, C., … Meredith, R. W. (2014). Comparative genomics reveals insights into avian genome evolution and adaptation. Science, 346(6215), 1311–1320. doi:10.1126/science.1251385
Jarvis, E. D., Mirarab, S., Aberer, A. J., Li, B., Houde, P., Li, C., … Howard, J. T. (2014). Whole-genome analyses resolve early branches in the tree of life of modern birds. Science, 346(6215), 1320–1331. doi:10.1126/science.1253451

Related datasets:

doi:10.5524/101016 IsSupplementTo doi:10.5524/101000

Accessions (data included in GigaDB):

BioProject: PRJNA212878
SRA: SRP028834

Projects:



Genomic

http://gigadb.org/images/data/cropped/bird/apaloderma_vittatum.png

Samples: Table Settings

Columns:

Common Name
Scienfic Name
Sample Attributes
Taxonomic ID
Genbank Name

Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
Bar-tailed trogon- TG657397Bar-tailed trogonApaloderma vittatum Source material identifiers:Tom Gilbert
Estimated genome size:unknown size
Funding source:BGI
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Displaying 1-1 of 1 Sample(s).

Files: (FTP site) Table Settings

Columns:

File Description
Sample ID
Data Type
File Format
Size
Release Date
Download Link
File Attributes

File NameSample IDData TypeFile FormatSizeRelease Date 
Bar-tailed trogon- TG6Coding sequenceFASTA5.19 MB2014-05-02
Bar-tailed trogon- TG6Sequence assemblyFASTA322.44 MB2014-05-02
Bar-tailed trogon- TG6AnnotationGFF1.29 MB2014-05-02
Bar-tailed trogon- TG6Protein sequenceFASTA3.38 MB2014-05-02
Bar-tailed trogon- TG6OtherUNKNOWN7.74 MB2014-05-02
Displaying 1-5 of 5 File(s).

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